Alicia
One more thought. I wonder if part of the problem is that you're
attempting to use ISA to do something it was not designed to deal with.
Sometimes that can work and result in a clever new approach, but in this
case, I don't see how it can work. As a recall, ISA is done by taking the
product
Thanks for so many thoughts!
Arne: I could use Condition() for that but something like
capscale(communitydistances ~ environmentalvar+Condition(region))
would not attempt what I need, because I need to fit a model only with
"region", extract residuals, and then do another analysis (ISA) with thes
On Tue, Mar 18, 2014 at 5:02 PM, Alicia Valdés
wrote:
...
> However, what I attempt to do is to perform an indicator species analysis
> (ISA) with these residuals. I want to see if I can find species which are
> indicators for different environmental conditions, but first I would like
> to remove
On Tue, Mar 18, 2014 at 5:02 PM, Alicia Valdés
wrote:
...
> However, what I attempt to do is to perform an indicator species analysis
> (ISA) with these residuals. I want to see if I can find species which are
> indicators for different environmental conditions, but first I would like
> to remove
On 18/03/2014, at 16:33 PM, Alicia Valdés wrote:
> Hi and many thanks for your replies,
>
> I have had a look at capscale() and betadisper(), but as you said, this could
> only provide "residuals" in fhe form of dissimilarities, and what I actually
> would like to have are true residuals, nega
Hi all,
On 18.03.2014 12:53, Alicia Valdés wrote:
> I would like to first use adonis to remove the region
> effect, this is, to fit a model like
Jari, and Eduard - please correct me if I'm wrong.
It's just a quick thought: couldn't you, Alicia, use Condition() to
remove the effect of region out o
Dear Alicia,
the mvabund package enables to fit Multivariate Generalized Linear Model
for presence/abscence data. I guess you could extract residuals.
HTH,
Pierre
*Pierre THIRIET*
Doctorant en écologie marine - Marine Ecology PhD student
-
Hi,
Yes, I know there are issues about using residuals as response variable,
and contrasting opinions about that.
However, what I attempt to do is to perform an indicator species analysis
(ISA) with these residuals. I want to see if I can find species which are
indicators for different environmen
You ought to be very careful about using residuals from one analysis as the
response variable in another analysis as the inferences about the second
analysis will almost certainly be flawed. Best to try and do this another
way if at all possible.
Brian
Brian S. Cade, PhD
U. S. Geological Survey
Hi and many thanks for your replies,
I have had a look at capscale() and betadisper(), but as you said, this
could only provide "residuals" in fhe form of dissimilarities, and what I
actually would like to have are true residuals, negative and positive.
I have also looked into ecodist, but I did
On 18/03/2014, at 15:23 PM, Eduard Szöcs wrote:
> Dear Alicia and Jari,
>
> just a thought:
> Couldn't be capscale or betadisper be used for this?
> - To obtain the distances to the group centroid?
>
> But than: How to convert this from distances to abundances?
>
You can *almost* do this with
Dear Alicia and Jari,
just a thought:
Couldn't be capscale or betadisper be used for this?
- To obtain the distances to the group centroid?
But than: How to convert this from distances to abundances?
Eduard Szöcs
On 03/18/2014 01:21 PM, Jari Oksanen wrote:
> Dear Alicia Valdés,
>
> On 18/03
Dear Alicia Valdés,
On 18/03/2014, at 13:53 PM, Alicia Valdés wrote:
>
> My problem is that I cannot figure out how to get residual values from the
> adonis model.
>
You cannot get residuals from the output of adonis().
We could change the function so that this is possible, but the current fu
Hi,
I am using the adonis function in the vegan package to determine effects of
different environmental factors in forest plant community composition in
different regions. I would like to first use adonis to remove the region
effect, this is, to fit a model like
adonis_region<- adonis(community ~
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